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Yes, it looks fine to me
Those dots seem to lie on the pial surface
On Thu, Mar 7, 2024, 10:07 PM Douglas N. Greve
wrote:
> Have you looked at the actual surface?
>
> On 3/7/2024 2:29 AM, Hyunchul Lee wrote:
>
> External Email - Use Caution
> Hello,
> I'm using Freesurfer recon-all to create reconstructions to use with
> MNE-python for source estimation of SEEG data. My work relies on having
> correct labeling of segmentation data. For most cases, there has been no
> trouble but I am having trouble where the cortical parcellation shows up as
> dots in one hemisphere. Please see image attached. I also noticed that the
> lh.ribbon.mgz is also 'dotty' (also attached). There is no issue with the
> right hemisphere. This reconstruction was not manually edited, but only
> recon-all was used.
>
> I have tried using mris_volmask --label_left_ribbon, setting the argument
> to various values. That didn't work that great - reducing to 0 basically
> whites everything out except for the white matter on the ipsilateral
> hemisphere and anything 1 or more produces the same 'dots'. Interestingly
> the pial and wm surfaces all look ok. Also, I am not sure if creating the
> correct ribbon.mgz is going to fix the aparc.a2009+aseg file.
>
> I would really appreciate your advice.
>
> Best regards,
>
> *Hyunchul Lee* MBBS PhD
>
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